Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 91 of 332
Found at i:29170255 original size:27 final size:27
Alignment explanation
Indices: 29170164--29170255 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
29170154 GTAAGTTCAC
* * *
29170164 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
29170191 AATCGAGGGTAAAACAGCAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* * * *
29170218 CATCAATGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
29170245 AATTGAGGGTA
1 AATCGAGGGTA
29170256 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:29171362 original size:28 final size:28
Alignment explanation
Indices: 29171322--29171375 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
29171312 TTTCATCCTC
29171322 GAAATTTTCCACTCTCAGACTACACCTT
1 GAAATTTTCCACTCTCAGACTACACCTT
29171350 GAAATTTTCCACTCTCAGACTACACC
1 GAAATTTTCCACTCTCAGACTACACC
29171376 ACCACACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (28 bp):
GAAATTTTCCACTCTCAGACTACACCTT
Found at i:29171787 original size:9 final size:9
Alignment explanation
Indices: 29171751--29171784 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
29171741 CCCAATTTTG
29171751 AAAAAAGAA
1 AAAAAAGAA
29171760 AAAAAAGAGA
1 AAAAAAGA-A
*
29171770 AAAAAATAA
1 AAAAAAGAA
29171779 AAAAAA
1 AAAAAA
29171785 TAACAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:29172717 original size:30 final size:30
Alignment explanation
Indices: 29172639--29172721 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
29172629 TCAGTCTCGA
*
29172639 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCAAAGCCTTTTCATAAAT
29172669 CATATCACTGGCCCAAAGCCTTTTCATAAAT
1 CATATCACTGG-CCAAAGCCTTTTCATAAAT
29172700 CATATCACTGGCCAAAGCCTTT
1 CATATCACTGGCCAAAGCCTTT
29172722 ACTGTAAGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (30 bp):
CATATCACTGGCCAAAGCCTTTTCATAAAT
Found at i:29172958 original size:24 final size:25
Alignment explanation
Indices: 29172931--29172982 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
29172921 GCCTAGCCTC
*
29172931 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
*
29172955 TTTTGATAAACTGAGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
29172980 TTT
1 TTT
29172983 CGGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGAGGCAAAGCCCT
Found at i:29172966 original size:25 final size:25
Alignment explanation
Indices: 29172938--29173007 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
29172928 CTCTTTTAAT
*
29172938 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
29172963 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
29172988 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
29173008 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:29173879 original size:27 final size:27
Alignment explanation
Indices: 29173817--29173904 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
29173807 GGCCATATTC
29173817 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * *
29173844 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
29173871 GTCTTTTTACC-TATTAGGGGTATTTTA
1 GTCATTTTACCATA-CAGGGGTATTACA
29173898 GTCATTT
1 GTCATTT
29173905 CATCCTACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.06
27 44 0.92
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:29173965 original size:27 final size:27
Alignment explanation
Indices: 29173935--29174042 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 27
29173925 GTAAATCTAC
29173935 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
29173962 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* *
29173988 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTAGTAATTTTGT
** *
29174018 AAGTC-AGTGGTATTTTGGTAATTTT
1 AAACCAAG-GGTATTTTAGTAATTTT
29174043 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.04
27 39 0.57
28 8 0.12
29 17 0.25
30 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:29174056 original size:27 final size:26
Alignment explanation
Indices: 29174026--29174121 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
29174016 GTAAGTCAGT
*
29174026 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAACT-AG
** *
29174053 GGTATTTCAGTAATTTCACAAACTAG
1 GGTATTTTGGTAATTTTACAAACTAG
*
29174079 TGGTATTTTTGTAATTTTACAAACTAG
1 -GGTATTTTGGTAATTTTACAAACTAG
29174106 GGTTATTTTGGTAATT
1 GG-TATTTTGGTAATT
29174122 CTACCCTATA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.07
27 55 0.93
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACTAG
Found at i:29174183 original size:27 final size:27
Alignment explanation
Indices: 29174153--29174236 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
29174143 GTAAGTTCAC
* * *
29174153 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
29174180 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* * *
29174207 AATCAAGGGTAAAATAGTGATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTA
29174234 AAT
1 AAT
29174237 TGAGGGTACT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTCTGTA
Found at i:29181984 original size:42 final size:42
Alignment explanation
Indices: 29181933--29182046 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
29181923 TTTGAGATTA
* * *
29181933 CATGTAAGACCATATCTCGGATATGGCATCGATATGAGA-CTT
1 CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATC-C
** * * *
29181975 TGTGTAAGACCATATCTGGGCTGTTGGCATCAATATGATATCC
1 CATGTAAGACCATATCTGGGAT-ATGGCATCAATATGAGATCC
29182018 CATGTAAGACCATATCTGGGATATGGCAT
1 CATGTAAGACCATATCTGGGATATGGCAT
29182047 TGGTATAATA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 24 0.41
43 33 0.57
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATCC
Found at i:29187627 original size:18 final size:18
Alignment explanation
Indices: 29187604--29187638 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29187594 TGGTTGTTTC
29187604 TAATGAGAATAAGAATGT
1 TAATGAGAATAAGAATGT
* *
29187622 TAATGAGCATAATAATG
1 TAATGAGAATAAGAATG
29187639 CACAAATTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (18 bp):
TAATGAGAATAAGAATGT
Found at i:29192194 original size:18 final size:18
Alignment explanation
Indices: 29192171--29192212 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
29192161 AAGGTGGCTA
29192171 GAGTTGATAAAGGATTAT
1 GAGTTGATAAAGGATTAT
29192189 GAGTTGATAAAGGATTAT
1 GAGTTGATAAAGGATTAT
29192207 GAGTTG
1 GAGTTG
29192213 GTGATTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (18 bp):
GAGTTGATAAAGGATTAT
Found at i:29195116 original size:48 final size:48
Alignment explanation
Indices: 29195064--29195291 Score: 191
Period size: 48 Copynumber: 4.8 Consensus size: 48
29195054 CAGCAGTGAA
* * *
29195064 ATGTGATCCCATGTAAGACCATGTTTTGGACATGGCTTTGGCATCATT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATT
* * *
29195112 ATGTGATCCCATGTAAGACCATGTCCACGACATGGCATTGGCATCATA
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATT
* * * * *
29195160 ATGAGA-CATCGTGTAAGACCATAGT-T-GGGCTATTGGC-TTAG-AT-A-T
1 ATGTGATC-CCATGTAAGACCAT-GTCTAGGAC-A-TGGCATTGGCATCATT
* ** *
29195205 GTGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGGGTCGTT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATT
* * * * *
29195253 ATTTGGTCCCATGTAAGACCATATCTGGGATATGGCATT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATT
29195292 AGCACCTTAC
Statistics
Matches: 141, Mismatches: 28, Indels: 22
0.74 0.15 0.12
Matches are distributed among these distances:
44 6 0.04
45 21 0.15
46 6 0.04
47 5 0.04
48 97 0.69
49 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATT
Found at i:29197773 original size:28 final size:28
Alignment explanation
Indices: 29197688--29197779 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
29197678 TGGGAAGTTG
*
29197688 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
**
29197716 TTCAGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
29197744 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
29197772 TTGGGCCT
1 TTGGGCCT
29197780 AAAACAGCCA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:29207214 original size:27 final size:27
Alignment explanation
Indices: 29207176--29207516 Score: 327
Period size: 27 Copynumber: 12.7 Consensus size: 27
29207166 AAATAAAGAG
* *
29207176 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
29207203 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACCGAAATACCCTCGATT-TGTA
* * *
29207229 AAATTACTGAAATACCCTCAATTCGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
29207256 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* *
29207283 AAATTACCGAAATGCCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
29207310 AAATTACTAAAATACCCTCGATTTAG-A
1 AAATTACCGAAATACCCTCGATTT-GTA
* * * *
29207337 AAATTATCGATATACCCCCTATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
29207364 AAATTACTAAAATACCCTTGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
29207391 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
29207418 AAGTTA-CTAAAGTACCCTCAATTTGTA
1 AAATTACCGAAA-TACCCTCGATTTGTA
*
29207445 AAATTACCGAAACACACC-CGATTTGTA
1 AAATTACCGAAATAC-CCTCGATTTGTA
* * *
29207472 AAATTATCGAAATACCCTTG-TGGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
29207499 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
29207517 TGTAGTGTAA
Statistics
Matches: 254, Mismatches: 48, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.00
26 30 0.12
27 213 0.84
28 10 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:29207554 original size:27 final size:27
Alignment explanation
Indices: 29207494--29207559 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
29207484 TACCCTTGTG
* * *
29207494 GTGTAAAATTACCAAAATACCCTTGTA
1 GTGTAAAATGACCAAAATACCCCTCTA
*
29207521 GTGTAAAATGACCAACATACCCCTCTA
1 GTGTAAAATGACCAAAATACCCCTCTA
29207548 G-GATAAAATGAC
1 GTG-TAAAATGAC
29207560 TGTTTTGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (27 bp):
GTGTAAAATGACCAAAATACCCCTCTA
Found at i:29213857 original size:43 final size:42
Alignment explanation
Indices: 29213749--29213857 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
29213739 AACTTATGAT
* * *
29213749 TTACGTGTAAGACCATGTTTGGGACATTGGCATCTTATTTGA
1 TTACATGTAAGACCACGTTTGGGACAGTGGCATCTTATTTGA
* *
29213791 TTTCACGTAAGACC-C-TATCTGGGACAGTGGCAT-TGATATTTGA
1 TTACATGTAAGACCACGT-T-TGGGACAGTGGCATCT--TATTTGA
29213834 TTACATGTAAGACCACGTTTGGGA
1 TTACATGTAAGACCACGTTTGGGA
29213858 TGTTGTCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 24 0.44
43 24 0.44
44 2 0.04
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACAGTGGCATCTTATTTGA
Found at i:29220733 original size:42 final size:43
Alignment explanation
Indices: 29220684--29220778 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
29220674 ATGATTTATG
* *
29220684 TGTAAGACCATGTGGGGGACA-TCAGCA-TCATATTTGATTTCA
1 TGTAAGACCATGTCGGGGACAGT-AGCATTCATATTTGATTACA
* * * *
29220726 TGTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCATGTCGGGGACAGTAGCATTCATATTTGATTACA
29220769 TGTAAGACCA
1 TGTAAGACCA
29220779 CGTCTAGAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 21 0.48
43 23 0.52
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCGGGGACAGTAGCATTCATATTTGATTACA
Found at i:29221029 original size:22 final size:23
Alignment explanation
Indices: 29220988--29221037 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
29220978 TATTATGTAG
29220988 AAATG-TTATGTATATATGAGC-
1 AAATGATTATGTATATATGAGCT
* *
29221009 AAATGATTATGTGTATTTGAGCT
1 AAATGATTATGTATATATGAGCT
29221032 AAATGA
1 AAATGA
29221038 GAAATATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (23 bp):
AAATGATTATGTATATATGAGCT
Found at i:29221380 original size:14 final size:14
Alignment explanation
Indices: 29221345--29221384 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
29221335 TATGTCTAGA
29221345 TTATGG-TTGA-AT
1 TTATGGTTTGATAT
29221357 TTATGGTTTGATAT
1 TTATGGTTTGATAT
29221371 TTA-GGATTTGATAT
1 TTATGG-TTTGATAT
29221385 GTGATGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 6 0.24
14 13 0.52
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (14 bp):
TTATGGTTTGATAT
Found at i:29222424 original size:35 final size:35
Alignment explanation
Indices: 29222378--29222448 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
29222368 GCTAGATTGA
29222378 GAATGTTTTGAATGCTTAATTATGCCTGGTTATGT
1 GAATGTTTTGAATGCTTAATTATGCCTGGTTATGT
29222413 GAATGTTTTGAATGCTTAATTATGCCTGGTTATGT
1 GAATGTTTTGAATGCTTAATTATGCCTGGTTATGT
29222448 G
1 G
29222449 CTATTTGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (35 bp):
GAATGTTTTGAATGCTTAATTATGCCTGGTTATGT
Found at i:29224986 original size:13 final size:12
Alignment explanation
Indices: 29224968--29225011 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
29224958 CCAACCACAT
29224968 GCCCATGTGACTA
1 GCCCATGTG-CTA
29224981 GCCCATGTGCTA
1 GCCCATGTGCTA
* *
29224993 GGCCGTGTGCTA
1 GCCCATGTGCTA
*
29225005 GGCCATG
1 GCCCATG
29225012 CCAAACCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.23
Consensus pattern (12 bp):
GCCCATGTGCTA
Found at i:29228686 original size:37 final size:37
Alignment explanation
Indices: 29228622--29228767 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
29228612 AGCTCAGATG
* * **
29228622 AAATCTCCACACGAAGTTATCAAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29228659 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29228696 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29228733 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29228768 ATATGTTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29228943 original size:47 final size:47
Alignment explanation
Indices: 29228912--29229199 Score: 495
Period size: 47 Copynumber: 6.1 Consensus size: 47
29228902 CACTTCCACG
**
29228912 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
29228959 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
29229006 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
29229053 TCCATCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
29229100 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
29229147 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
29229194 TTCATC
1 TTCATC
29229200 TCATAGAATC
Statistics
Matches: 226, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 226 1.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:29229036 original size:22 final size:22
Alignment explanation
Indices: 29228962--29229037 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
29228952 GTTCACATTC
29228962 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
29228984 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
29229008 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29229031 ATCACAT
1 ATCACAT
29229038 ATTTGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 13 0.32
23 11 0.27
24 11 0.27
25 6 0.15
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29234193 original size:18 final size:19
Alignment explanation
Indices: 29234157--29234193 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29234147 GCCCAATGCA
29234157 TTGGCATGGTTGAAATTGT
1 TTGGCATGGTTGAAATTGT
29234176 TTGGCATGGTTG-AATTGT
1 TTGGCATGGTTGAAATTGT
29234194 GAATATGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (19 bp):
TTGGCATGGTTGAAATTGT
Found at i:29235756 original size:31 final size:32
Alignment explanation
Indices: 29235715--29235777 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
29235705 TTATTTATAA
*
29235715 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
29235746 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
29235778 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:29237634 original size:47 final size:47
Alignment explanation
Indices: 29237557--29237673 Score: 155
Period size: 47 Copynumber: 2.5 Consensus size: 47
29237547 GATATTGTTA
* * * *
29237557 CTGT-TACCGTTACTATTACTATTTCGGATTTGTTTCGATAAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTTCAGATTTGTTCCGATAAGGTACT
*
29237604 CTGTGTACCGTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTTCAGATTTGTTCCGATAAGGTACT
* *
29237651 CTGTGTACCGTATTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
29237674 ACTGTTACTG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 57 0.92
48 5 0.08
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.43
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTTCAGATTTGTTCCGATAAGGTACT
Found at i:29237866 original size:18 final size:18
Alignment explanation
Indices: 29237801--29237886 Score: 109
Period size: 18 Copynumber: 4.7 Consensus size: 18
29237791 AAAGATCGAC
*
29237801 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
*
29237820 TGTTACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
* *
29237838 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* *
29237856 TGTTACCGAATAATTGAC
1 TGTTACTGAATAATTGAT
29237874 TGTTACTGAATAA
1 TGTTACTGAATAA
29237887 ATAATCGTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
18 44 0.77
19 13 0.23
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:29265117 original size:39 final size:39
Alignment explanation
Indices: 29265059--29265237 Score: 259
Period size: 39 Copynumber: 4.5 Consensus size: 39
29265049 GCATGATATT
29265059 TGGAATTATAATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAATTAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
**
29265099 TGGAATTATATCCGGACTTAAGGTCTACAGGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
* *
29265138 TGGAAATATATCCAGACTTAAGGTCCGCAGGCTATATGC
1 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
* * *
29265177 TGGAATTATAATCCGGACTTAAGGTTCGCAGGTTACATGC
1 TGGAATTAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
* *
29265217 TGGAAATATATCCGGGCTTAA
1 TGGAATTATATCCGGACTTAA
29265238 AGTTCCGAAG
Statistics
Matches: 125, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 82 0.66
40 43 0.34
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (39 bp):
TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
Found at i:29265237 original size:79 final size:78
Alignment explanation
Indices: 29265059--29265237 Score: 270
Period size: 79 Copynumber: 2.3 Consensus size: 78
29265049 GCATGATATT
*
29265059 TGGAATTATAATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAAGGTC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAAGGTC
*
29265124 TACAGGCTATATGC
65 TACAGGCTACATGC
*
29265138 TGGAAATATATCCAGACTTAAGGTCCGCAGGCTATATGCTGGAATTATAATCCGGACTTAAGGT-
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAATTAT-ATCCGGACTTAAGGTC
* *
29265202 TCGCAGGTTACATGC
65 T-ACAGGCTACATGC
*
29265217 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
29265238 AGTTCCGAAG
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 39 0.43
79 52 0.57
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (78 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAAGGTCT
ACAGGCTACATGC
Found at i:29270229 original size:42 final size:41
Alignment explanation
Indices: 29270181--29270269 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 41
29270171 TTATACATAA
29270181 GCACACTTAGTGCTATAAGGTTAGCCGAAGCTAAATATTTCC
1 GCACACTTAGTGCT-TAAGGTTAGCCGAAGCTAAATATTTCC
29270223 G--CAC--A---CTTAAGGTTAGCCGAAGCTAAATATTTCC
1 GCACACTTAGTGCTTAAGGTTAGCCGAAGCTAAATATTTCC
29270257 GCACACTTAGTGC
1 GCACACTTAGTGC
29270270 CGTCTCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
34 28 0.70
35 2 0.05
36 3 0.08
38 2 0.05
40 3 0.08
41 1 0.03
42 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
GCACACTTAGTGCTTAAGGTTAGCCGAAGCTAAATATTTCC
Found at i:29270239 original size:34 final size:34
Alignment explanation
Indices: 29270196--29270265 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
29270186 CTTAGTGCTA
29270196 TAAGGTTAGCCGAAGCTAAATATTTCCGCACACT
1 TAAGGTTAGCCGAAGCTAAATATTTCCGCACACT
29270230 TAAGGTTAGCCGAAGCTAAATATTTCCGCACACT
1 TAAGGTTAGCCGAAGCTAAATATTTCCGCACACT
29270264 TA
1 TA
29270266 GTGCCGTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (34 bp):
TAAGGTTAGCCGAAGCTAAATATTTCCGCACACT
Found at i:29270385 original size:29 final size:29
Alignment explanation
Indices: 29270326--29270383 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
29270316 CAAATAGCCG
*
29270326 AAGCTAGTTAAATCGCGCACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
*
29270355 AAGCTAGTTTAAATCGTACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
29270384 AAAACTTCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:29276546 original size:43 final size:43
Alignment explanation
Indices: 29276495--29276581 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
29276485 TATTAGATTC
29276495 TTTAATTATTATTTATATACTTACTTACTAAGCTATATAAGCT
1 TTTAATTATTATTTATATACTTACTTACTAAGCTATATAAGCT
*
29276538 TTTAATTATTATTTATGTACTTACTTACTAAGCTATATAAGCT
1 TTTAATTATTATTTATATACTTACTTACTAAGCTATATAAGCT
29276581 T
1 T
29276582 ACTTTCTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (43 bp):
TTTAATTATTATTTATATACTTACTTACTAAGCTATATAAGCT
Found at i:29284215 original size:80 final size:79
Alignment explanation
Indices: 29284076--29284231 Score: 226
Period size: 80 Copynumber: 2.0 Consensus size: 79
29284066 GAACTAAGAT
* **
29284076 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
29284140 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
*
29284156 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
*
29284220 ATATCCGGTTAA
65 AAATCCGGTTAA
29284232 ATTCTGAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
79 8 0.12
80 59 0.86
81 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:29284222 original size:40 final size:40
Alignment explanation
Indices: 29284023--29284208 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
29284013 TTGAATGATG
* * * * *
29284023 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
***
29284063 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
29284103 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
29284143 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
29284184 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
29284209 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29285697 original size:28 final size:29
Alignment explanation
Indices: 29285669--29285768 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
29285659 TATTAAACCC
*
29285669 AATCATATTCATATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
* * *
29285698 AACCACCTAT-ATATGGCCCATCAGGCCCA
1 AATCACAT-TCATATGGCCCATTAGGCCCA
* * *
29285727 AATCACATTTATATGGCCCGTTAAGCCC-
1 AATCACATTCATATGGCCCATTAGGCCCA
*
29285755 AGTCACATTCATAT
1 AATCACATTCATAT
29285769 TCATGCTCAC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 13 0.22
29 44 0.76
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:29288498 original size:29 final size:29
Alignment explanation
Indices: 29288439--29288496 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
29288429 CAAATAGCCA
29288439 AAGCTAGTTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
29288468 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
29288497 AAATCTTCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:29289898 original size:34 final size:33
Alignment explanation
Indices: 29289852--29289951 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 33
29289842 TTGCATTTTG
*
29289852 TACTGATTCTGTTACTGAATTGGGCTAAGGCCCA
1 TACTGATACTGTTACTGAATTGGG-TAAGGCCCA
29289886 TACTGATACTGTTACTGAATTGGGTTAAGGCCCA
1 TACTGATACTGTTACTGAATTGGG-TAAGGCCCA
* * *
29289920 CACTGTTACTGCTACTGAA-TGGGTAAAGGCCC
1 TACTGATACTGTTACTGAATTGGGT-AAGGCCC
29289952 TAACTGAGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 48 0.80
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (33 bp):
TACTGATACTGTTACTGAATTGGGTAAGGCCCA
Found at i:29293866 original size:247 final size:248
Alignment explanation
Indices: 29293415--29293915 Score: 709
Period size: 247 Copynumber: 2.0 Consensus size: 248
29293405 GGCAAATGGC
* * *
29293415 TTGGAAAATAGCCTAGAAATTGTCCACATGGTTAGACACACGGGAATGTATCTAGGCCATGTGTG
1 TTGGAAAATAGACTAGAAATTGTCCACACGGTTAGACACACAGGAATGTATCTAGGCCATGTGTG
* *
29293480 ACACACGATCTACTCCATGGGCGTGTGATCTAGCCGTGTTTCCCCTGCACCCTAATTATGCAAAA
66 ACACACGATCTACTCCATGGGCGTGTGATCCAGCCGTGTGTCCCCTGCACCCTAATTATGCAAAA
* * * ** *
29293545 TAGAATATCCAGTAGTAAACACATGGGCAAAGACACGGTAGTGTGTCTCAACCGTGTGAAGGACA
131 TAGAATACCCAGTAGTAAACACACGAGCAAAGACACGACAGTGTGTCTCAACCATGTGAAGGACA
* * *
29293610 CAGCCTTAGGACATGGGCATGTGCCCAGGCCGTGTGAAGTCTGCACTTAATTT
196 CAGCCTTAGGACATGGGCATATGCCCAGGCCATGTGAAGTCTGCACTTAAATT
* * * *
29293663 TTGGAAAATAGACTAGAAATTGTCCACACGGTTAGACACACAGGCATGTGTCTAGGCCGTGTTTG
1 TTGGAAAATAGACTAGAAATTGTCCACACGGTTAGACACACAGGAATGTATCTAGGCCATGTGTG
* * * * * *
29293728 ACCCACGGTCTACTCCATGGGTGTGTGATCCAGTCGTGTGT-CTCTGCATCCTAATTATGCAAAA
66 ACACACGATCTACTCCATGGGCGTGTGATCCAGCCGTGTGTCCCCTGCACCCTAATTATGCAAAA
* * * *
29293792 TAGAATGCCCAGTAGTAAGCACACGAGTAAAGACACGACAGTGTGTCTCAGCCATGTGAAGGACA
131 TAGAATACCCAGTAGTAAACACACGAGCAAAGACACGACAGTGTGTCTCAACCATGTGAAGGACA
* *
29293857 -TGACCTTAGGACATGGGCGTATGCCCAGGCCATGTGAAGTCTGCACTTAAATT
196 CAG-CCTTAGGACATGGGCATATGCCCAGGCCATGTGAAGTCTGCACTTAAATT
29293910 TTGGAA
1 TTGGAA
29293916 TTTAATTCAC
Statistics
Matches: 222, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
246 1 0.00
247 128 0.58
248 93 0.42
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (248 bp):
TTGGAAAATAGACTAGAAATTGTCCACACGGTTAGACACACAGGAATGTATCTAGGCCATGTGTG
ACACACGATCTACTCCATGGGCGTGTGATCCAGCCGTGTGTCCCCTGCACCCTAATTATGCAAAA
TAGAATACCCAGTAGTAAACACACGAGCAAAGACACGACAGTGTGTCTCAACCATGTGAAGGACA
CAGCCTTAGGACATGGGCATATGCCCAGGCCATGTGAAGTCTGCACTTAAATT
Found at i:29296378 original size:14 final size:14
Alignment explanation
Indices: 29296359--29296385 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29296349 TGAAAGTGAG
29296359 AAATTGAGGGGCTA
1 AAATTGAGGGGCTA
29296373 AAATTGAGGGGCT
1 AAATTGAGGGGCT
29296386 GATAGGGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.22
Consensus pattern (14 bp):
AAATTGAGGGGCTA
Found at i:29296935 original size:44 final size:43
Alignment explanation
Indices: 29296861--29296958 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
29296851 GAATAAGTGA
* * *
29296861 CACTAAGTGTGCGATACCTATATAAGTTCGATTTAATGAAATGG
1 CACTAAGTGTGCGATACATATATAAGTTCGA-CTAATGAAATAG
* *
29296905 CACTAAGTGTGCGATA-ATAT-TATAGCTTCGACTAATTAATTAG
1 CACTAAGTGTGCGATACATATATA-AG-TTCGACTAATGAAATAG
29296948 CACTAAGTGTG
1 CACTAAGTGTG
29296959 TGAGTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.04
43 24 0.51
44 21 0.45
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (43 bp):
CACTAAGTGTGCGATACATATATAAGTTCGACTAATGAAATAG
Found at i:29300728 original size:42 final size:42
Alignment explanation
Indices: 29300669--29300753 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
29300659 AATATAAGCC
29300669 AATACATTTGGCTAATCATAACAACATCTATCATAAAAACTA
1 AATACATTTGGCTAATCATAACAACATCTATCATAAAAACTA
29300711 AATACATTTGGCTAATCATAACAACATCTATCATAAAAACTA
1 AATACATTTGGCTAATCATAACAACATCTATCATAAAAACTA
29300753 A
1 A
29300754 GTCGCTATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.28
Consensus pattern (42 bp):
AATACATTTGGCTAATCATAACAACATCTATCATAAAAACTA
Found at i:29302160 original size:48 final size:48
Alignment explanation
Indices: 29302092--29302466 Score: 504
Period size: 48 Copynumber: 7.8 Consensus size: 48
29302082 ATGAATCCAC
* * *
29302092 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
29302140 ATATCATCGCCAATGTCATGTCCCAGACATGGTCTTA-ATAGGCACAT
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * * * *
29302187 ATAACATCGTCGATGCCATGTCCCAGACATAGTCTTACACAAGCATAT
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
*
29302235 ATATCATC-CCAATGCCATGTCCCAGACATAGTCTTACACAGGCACAT
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
29302282 ATATCATCCCCAATGCCATGTCCCAGACATGGTCTTACACAGTCACAT
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * *
29302330 ATATCATTGCCGATGTCATGTCCTAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* *
29302378 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACATAGGCACAC
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * *
29302426 ATTTCAGGT-GTCGATGCCATGTCCCAGACATGGTCTTACAC
1 ATATCA--TCGCCAATGCCATGTCCCAGACATGGTCTTACAC
29302467 GAAATCTCAT
Statistics
Matches: 287, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
47 82 0.29
48 175 0.61
49 29 0.10
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:29302222 original size:95 final size:96
Alignment explanation
Indices: 29302092--29302466 Score: 504
Period size: 95 Copynumber: 3.9 Consensus size: 96
29302082 ATGAATCCAC
* * *
29302092 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCCAATGTC
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCAATGCC
*
29302157 ATGTCCCAGACATGGTCTTA-ATAGGCACAT
66 ATGTCCCAGACATGGTCTTACACAGGCACAT
* * * * * * *
29302187 ATAACATCGTCGATGCCATGTCCCAGACATAGTCTTACACAAGCATATATATCATC-CCAATGCC
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCAATGCC
*
29302251 ATGTCCCAGACATAGTCTTACACAGGCACAT
66 ATGTCCCAGACATGGTCTTACACAGGCACAT
* * * * * *
29302282 ATATCATCCCCAATGCCATGTCCCAGACATGGTCTTACACAGTCACATATATCATTGCCGATGTC
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCAATGCC
*
29302347 ATGTCCTAGACATGGTCTTACACAGGCACAT
66 ATGTCCCAGACATGGTCTTACACAGGCACAT
* * * *
29302378 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACATAGGCACACATTTCAGGT-GTCGATG
1 ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCA--TCGCCAATG
29302442 CCATGTCCCAGACATGGTCTTACAC
64 CCATGTCCCAGACATGGTCTTACAC
29302467 GAAATCTCAT
Statistics
Matches: 245, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
94 26 0.11
95 105 0.43
96 84 0.34
97 29 0.12
98 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (96 bp):
ATATCATCGCCAATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCAATGCC
ATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:29304636 original size:50 final size:49
Alignment explanation
Indices: 29304518--29304647 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 49
29304508 CTAGTACGCA
* * **
29304518 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
29304567 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
29304617 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
29304648 TTACATTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 29 0.39
50 41 0.55
51 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:29317559 original size:18 final size:18
Alignment explanation
Indices: 29317520--29317560 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
29317510 AGAATAAAAT
*
29317520 AAAAACTAAAAAAAAGGT
1 AAAAACTAAAAAAAAGGA
*
29317538 AAAAACTAAAAAAAATGA
1 AAAAACTAAAAAAAAGGA
29317556 AAAAA
1 AAAAA
29317561 AAAGGAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (18 bp):
AAAAACTAAAAAAAAGGA
Found at i:29319132 original size:3 final size:3
Alignment explanation
Indices: 29319126--29319196 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
29319116 ACAGTAATTC
** * *
29319126 TAA TAA TAA TAA GCA TAA TAA TAA -AA TTAA TAA TAG TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
*
29319171 T-A TAC TAA TAA -AA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA
29319197 ATAAAAACAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 6 0.11
3 42 0.79
4 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:29319571 original size:33 final size:33
Alignment explanation
Indices: 29319528--29319593 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
29319518 CTCTCTAACT
*
29319528 TGATTAACACGGCCAAGCCACACACCCGTGTGC
1 TGATTAACACGACCAAGCCACACACCCGTGTGC
*
29319561 TGATTCACACGACCAAGCCACACACCCGTGTGC
1 TGATTAACACGACCAAGCCACACACCCGTGTGC
29319594 CAGGCTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.20, T:0.15
Consensus pattern (33 bp):
TGATTAACACGACCAAGCCACACACCCGTGTGC
Found at i:29325733 original size:64 final size:64
Alignment explanation
Indices: 29325650--29325770 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
29325640 TATGTGAGTA
* * * * *
29325650 ATGCAATATGTACTCTATTTTAAATGCTTAAATGTTGCTTGTATGGTAAGTTCATATTCAAATT
1 ATGCAATATGTACTCTATTTTAAATGCTTAAATATTGCATGCATGCTAAGTACATATTCAAATT
*
29325714 ATGCAATATGTAC-CATATTTTAAATGCTTTAATATTGCATGCATGCTAAGTACATAT
1 ATGCAATATGTACTC-TATTTTAAATGCTTAAATATTGCATGCATGCTAAGTACATAT
29325771 ATAATTAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 1 0.02
64 49 0.98
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (64 bp):
ATGCAATATGTACTCTATTTTAAATGCTTAAATATTGCATGCATGCTAAGTACATATTCAAATT
Found at i:29334252 original size:13 final size:13
Alignment explanation
Indices: 29334230--29334265 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
29334220 GACAGGGACG
29334230 CGCCCGTGTGACA
1 CGCCCGTGTGACA
*
29334243 CGCTCGTGTGACA
1 CGCCCGTGTGACA
29334256 CGCCCGTGTG
1 CGCCCGTGTG
29334266 CGATTGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.11, C:0.36, G:0.33, T:0.19
Consensus pattern (13 bp):
CGCCCGTGTGACA
Found at i:29335224 original size:29 final size:28
Alignment explanation
Indices: 29335191--29335333 Score: 151
Period size: 29 Copynumber: 4.9 Consensus size: 28
29335181 GTGTGCAAAA
* *
29335191 TGATGGTTGTCACCGTCCCTTTTCATGTT
1 TGATGGTCGTCACCATCCCTTTTCAT-TT
**
29335220 TGATGGTCGAAACCATCCCTTTTCATTT
1 TGATGGTCGTCACCATCCCTTTTCATTT
* *
29335248 ATCGATGGTTGTCACCAACCCTTTTCATTGT
1 -T-GATGGTCGTCACCATCCCTTTTCATT-T
* **
29335279 TGATGGTCGTCACCATCTCTTTTCACAGT
1 TGATGGTCGTCACCATCCCTTTTCA-TTT
*
29335308 TGATGGTAGTCACCATCCCTTTTCAT
1 TGATGGTCGTCACCATCCCTTTTCAT
29335334 AATCAATAAC
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.02
29 68 0.72
30 23 0.24
31 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (28 bp):
TGATGGTCGTCACCATCCCTTTTCATTT
Found at i:29335284 original size:59 final size:59
Alignment explanation
Indices: 29335192--29335333 Score: 173
Period size: 59 Copynumber: 2.4 Consensus size: 59
29335182 TGTGCAAAAT
* *
29335192 GATGGTTGTCACCGTCCCTTTTCA-TGTTTGATGGTCGAAACCATCCCTTTTCATTTA-TC
1 GATGGTTGTCACCATCCCTTTTCATTGTTTGATGGTCGAAACCATCCCTTTTCA--CAGTC
* ** * *
29335251 GATGGTTGTCACCAACCCTTTTCATTG-TTGATGGTCGTCACCATCTCTTTTCACAGTT
1 GATGGTTGTCACCATCCCTTTTCATTGTTTGATGGTCGAAACCATCCCTTTTCACAGTC
*
29335309 GATGGTAGTCACCATCCCTTTTCAT
1 GATGGTTGTCACCATCCCTTTTCAT
29335334 AATCAATAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 1 0.01
58 24 0.33
59 45 0.62
60 2 0.03
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (59 bp):
GATGGTTGTCACCATCCCTTTTCATTGTTTGATGGTCGAAACCATCCCTTTTCACAGTC
Found at i:29335357 original size:29 final size:29
Alignment explanation
Indices: 29335325--29335456 Score: 115
Period size: 29 Copynumber: 4.6 Consensus size: 29
29335315 AGTCACCATC
* *
29335325 CCTTTTCATAATCAATAACCGAAGCTATT
1 CCTTTTCATAATCGATAGCCGAAGCTATT
* * * * * * * *
29335354 CCTTTTTATATTCTATGGTCGTCA-CCATC
1 CCTTTTCATAATCGATAGCCG-AAGCTATT
*
29335383 CCTTTTCATAATCGATAGTCGAAGCTA-T
1 CCTTTTCATAATCGATAGCCGAAGCTATT
*
29335411 CCTTTTCCATAATCGATAGCCAAAGCTATT
1 CCTTTT-CATAATCGATAGCCGAAGCTATT
*
29335441 CCTTTTCATATTCGAT
1 CCTTTTCATAATCGAT
29335457 GGTCGTCACC
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
28 7 0.09
29 65 0.81
30 8 0.10
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.39
Consensus pattern (29 bp):
CCTTTTCATAATCGATAGCCGAAGCTATT
Found at i:29335359 original size:58 final size:57
Alignment explanation
Indices: 29335297--29335417 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 57
29335287 GTCACCATCT
29335297 CTTTTCACAGTT-GATGGTAGTCACCATCCCTTTTCATAATCAATAACCGAAGCTATTC
1 CTTTTCACA-TTCGATGGTAGTCACCATCCCTTTTCATAATCAATAACCGAAGCTA-TC
* * * * * **
29335355 CTTTTTATATTCTATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATC
1 CTTTTCACATTCGATGGTAGTCACCATCCCTTTTCATAATCAATAACCGAAGCTATC
29335412 CTTTTC
1 CTTTTC
29335418 CATAATCGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 9 0.17
58 45 0.83
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.39
Consensus pattern (57 bp):
CTTTTCACATTCGATGGTAGTCACCATCCCTTTTCATAATCAATAACCGAAGCTATC
Found at i:29335422 original size:87 final size:86
Alignment explanation
Indices: 29335267--29335536 Score: 296
Period size: 87 Copynumber: 3.1 Consensus size: 86
29335257 TGTCACCAAC
* * * * * *
29335267 CCTTTTCAT-TGTTGATGGTCGTCACCATCTCTTTTCACAGTTGATGGT-AGTCACCATCCCTTT
1 CCTTTTCATAT-TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCA--CACCATCCCTTT
* *
29335330 TCATAATCAATAACCGAAGCTATT
63 TCATAATCGATAACCAAAGCTATT
* * *
29335354 CCTTTTTATATTCTATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGA-AGCTAT-CCTTTT
1 CCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTC-ACA-CCATCCCTTTT
*
29335417 CCATAATCGATAGCCAAAGCTATT
64 -CATAATCGATAACCAAAGCTATT
* * * *
29335441 CCTTTTCATATTCGATGGTCGTCACCGTCCTTTTTCATAATTGATTGTCATCACCATCCCTTTTC
1 CCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCA-CACCATCCCTTTTC
*
29335506 ATAATCGATAACCAAAGCTATC
65 ATAATCGATAACCAAAGCTATT
29335528 CCTTTTCAT
1 CCTTTTCAT
29335537 TGGTCGATGA
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
86 8 0.05
87 137 0.89
88 8 0.05
89 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (86 bp):
CCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCACACCATCCCTTTTCA
TAATCGATAACCAAAGCTATT
Found at i:29335475 original size:29 final size:29
Alignment explanation
Indices: 29335441--29335514 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
29335431 CAAAGCTATT
* *
29335441 CCTTTTCATATTCGATGGTCGTCACCGTC
1 CCTTTTCATATTCGATGGTCATCACCATC
* *
29335470 CTTTTTCATAATT-GATTGTCATCACCATC
1 CCTTTTCAT-ATTCGATGGTCATCACCATC
*
29335499 CCTTTTCATAATCGAT
1 CCTTTTCATATTCGAT
29335515 AACCAAAGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 2 0.05
29 32 0.86
30 3 0.08
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (29 bp):
CCTTTTCATATTCGATGGTCATCACCATC
Found at i:29335534 original size:58 final size:58
Alignment explanation
Indices: 29335317--29335536 Score: 169
Period size: 58 Copynumber: 3.8 Consensus size: 58
29335307 TTGATGGTAG
* * * * * *
29335317 TCACCATCCCTTTTCATAATCAATAACCGAAGCTATTCCTTTTTAT-ATTCTATGGTCG
1 TCACCATCCCTTTTCATAATCGATAACCGAAGCTATCCCTTTTCATAATT-GATAGTCA
** * *
29335375 TCACCATCCCTTTTCATAATCGATAGTCGAAGCTAT-CCTTTTCCATAATCGATAGCCA
1 TCACCATCCCTTTTCATAATCGATAACCGAAGCTATCCCTTTT-CATAATTGATAGTCA
* * * * *** * ** * *
29335433 -AAGCTATTCCTTTTCATATTCGATGGTCGTCA-CCGTCCTTTTTCATAATTGATTGTCA
1 TCA-CCATCCCTTTTCATAATCGATAACCG-AAGCTATCCCTTTTCATAATTGATAGTCA
*
29335491 TCACCATCCCTTTTCATAATCGATAACCAAAGCTATCCCTTTTCAT
1 TCACCATCCCTTTTCATAATCGATAACCGAAGCTATCCCTTTTCAT
29335537 TGGTCGATGA
Statistics
Matches: 122, Mismatches: 33, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
57 8 0.07
58 105 0.86
59 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (58 bp):
TCACCATCCCTTTTCATAATCGATAACCGAAGCTATCCCTTTTCATAATTGATAGTCA
Found at i:29336026 original size:28 final size:29
Alignment explanation
Indices: 29335994--29336048 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
29335984 TACTTTTAAA
* *
29335994 TAACAACTAATATCTCAA-ATTCATCATT
1 TAACAACTAAAATCACAAGATTCATCATT
*
29336022 TAACATCTAAAATCACAAGATTCATCA
1 TAACAACTAAAATCACAAGATTCATCA
29336049 ATGACAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (29 bp):
TAACAACTAAAATCACAAGATTCATCATT
Found at i:29339002 original size:48 final size:48
Alignment explanation
Indices: 29338884--29339213 Score: 331
Period size: 48 Copynumber: 6.9 Consensus size: 48
29338874 GGTAAGATAT
* * * * * *
29338884 CGATGCCATGTTCCAGACATGGTCCTACACTGGCTCTTATATATCG-GTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTC--ACATATCGAG-GC
* * * *
29338934 CTATGCCATGTTCCAAACATGGTGTTACACTAGCTAACATATCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * *
29338982 CGTTGCCATGTCCCAGACATGATCTTACACTAGCTCACATATCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * ** * * *
29339030 CGATGCCATGTCCCAGATATGGT-TTACACTAGCTCTTATATCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * * *
29339077 CAATCCCATGTTCCAAACATGGTCTTACACTAGCTCACATATTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * * * *
29339125 TGATGCCATGTCCCAAACACGGTCTTACACTAGCTCTCATATCAACGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
* * *
29339173 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
29339214 ACCCTAGTAT
Statistics
Matches: 231, Mismatches: 47, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
47 37 0.16
48 163 0.71
49 1 0.00
50 30 0.13
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGC
Found at i:29339151 original size:143 final size:146
Alignment explanation
Indices: 29338884--29339208 Score: 440
Period size: 143 Copynumber: 2.2 Consensus size: 146
29338874 GGTAAGATAT
* ** * *
29338884 CGATGCCATGTTCCAGACATGGTCCTACACTGGCTCTTATATATCGGTGTCTATGCCATGTTCCA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTTATATATCAATGTCAATCCCATGTTCCA
* * * *
29338949 AACATGGTGTTACACTAGCTAACATATCGAGGCCGTTGCCATGTCCCAGACATGATCTTACACTA
66 AACATGGTCTTACACTAGCTAACATATCGAGGCCGATGCCATGTCCCAAACACGATCTTACACTA
* *
29339014 GCTCACATATCGAGGC
131 GCTCACATATCAACGC
* * *
29339030 CGATGCCATGTCCCAGATATGGT-TTACACTAGCTC-T-TATATCAATGTCAATCCCATGTTCCA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTTATATATCAATGTCAATCCCATGTTCCA
* * * *
29339092 AACATGGTCTTACACTAGCTCACATATTGAGGCTGATGCCATGTCCCAAACACGGTCTTACACTA
66 AACATGGTCTTACACTAGCTAACATATCGAGGCCGATGCCATGTCCCAAACACGATCTTACACTA
*
29339157 GCTCTCATATCAACGC
131 GCTCACATATCAACGC
* *
29339173 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTC
29339209 ACATAACCCT
Statistics
Matches: 154, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
143 111 0.72
144 12 0.08
145 10 0.06
146 21 0.14
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (146 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTTATATATCAATGTCAATCCCATGTTCCA
AACATGGTCTTACACTAGCTAACATATCGAGGCCGATGCCATGTCCCAAACACGATCTTACACTA
GCTCACATATCAACGC
Found at i:29343774 original size:27 final size:27
Alignment explanation
Indices: 29343734--29343827 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 27
29343724 AGGAAGCGTC
*
29343734 CTGGTGGCTATGCCATAAATATCTGAT
1 CTGGTGGCTCTGCCATAAATATCTGAT
* * *
29343761 CTGGTGGCTCTGCCACATATTTCT-ATT
1 CTGGTGGCTCTGCCATAAATATCTGA-T
* *
29343788 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCATAAATATCTG-AT
*
29343816 CTGGTGACTCTG
1 CTGGTGGCTCTG
29343828 TCACATTATC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
26 1 0.02
27 40 0.74
28 12 0.22
29 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCATAAATATCTGAT
Found at i:29343840 original size:54 final size:54
Alignment explanation
Indices: 29343734--29343845 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
29343724 AGGAAGCGTC
* *
29343734 CTGGTGGCTATGCCATAAATATCTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCATAAATATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
29343788 CTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCATAAATATCTG-ATCTGGTGACTCTGCCACATATATCTATT
29343842 CTGG
1 CTGG
29343846 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCATAAATATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:29344845 original size:15 final size:16
Alignment explanation
Indices: 29344816--29344846 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29344806 AATGAGTTTA
29344816 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
29344832 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
29344847 ATAGAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:29351474 original size:28 final size:28
Alignment explanation
Indices: 29351442--29351505 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
29351432 TAAGAATAGT
29351442 GAAATTACT-TGAATACCCCTATGTATGG
1 GAAATTACTGT-AATACCCCTATGTATGG
*
29351470 GAAATTACTGTTATACCCCTATGTATGG
1 GAAATTACTGTAATACCCCTATGTATGG
*
29351498 AAAATTAC
1 GAAATTAC
29351506 CATTATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (28 bp):
GAAATTACTGTAATACCCCTATGTATGG
Found at i:29351511 original size:28 final size:28
Alignment explanation
Indices: 29351454--29351518 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
29351444 AATTACTTGA
* **
29351454 ATACCCCTATGTATGGGAAATTACTGTT
1 ATACCCCTATGTATGGAAAATTACCATT
29351482 ATACCCCTATGTATGGAAAATTACCATT
1 ATACCCCTATGTATGGAAAATTACCATT
29351510 ATACCCCTA
1 ATACCCCTA
29351519 GGGGTACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGGAAAATTACCATT
Found at i:29351730 original size:27 final size:27
Alignment explanation
Indices: 29351637--29351735 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
29351627 GTGGGTATGT
29351637 CACAATTATCTGATT-TGGTGGCTCTGC
1 CACAATTATCTG-TTCTGGTGGCTCTGC
* * *
29351664 CAC-ATATATCTATTCTGGTGGTTCTAC
1 CACAAT-TATCTGTTCTGGTGGCTCTGC
* * *
29351691 CACGATTATCTGTATCTGGTGACTCTGT
1 CACAATTATCTGT-TCTGGTGGCTCTGC
29351719 CAC-ATTATCTGTTCTGG
1 CACAATTATCTGTTCTGG
29351736 CAGCCATGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.15
27 36 0.60
28 15 0.25
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (27 bp):
CACAATTATCTGTTCTGGTGGCTCTGC
Found at i:29353101 original size:29 final size:29
Alignment explanation
Indices: 29353068--29353152 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
29353058 GAATACAAGA
* * *
29353068 TGATTTGGGCCTAACGGGCCATATAAAGG
1 TGATTTGGGCCTGATGGGCCATATAAACG
* * *
29353097 TGATTTAGGTCTGATGGGCCATATGAACG
1 TGATTTGGGCCTGATGGGCCATATAAACG
* *
29353126 TGAATTGAGCCTGATGGGCCATATAAA
1 TGATTTGGGCCTGATGGGCCATATAAA
29353153 TGAGATTAGG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGATTTGGGCCTGATGGGCCATATAAACG
Found at i:29357097 original size:40 final size:40
Alignment explanation
Indices: 29357014--29357276 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
29357004 TTGAATGCTG
* * * * * *
29357014 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29357054 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29357094 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29357134 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
29357174 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29357214 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29357253 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29357277 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29357296 original size:79 final size:80
Alignment explanation
Indices: 29357053--29357311 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
29357043 AAGTGAATAT
* * * * * * *
29357053 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
29357117 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
29357133 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
29357198 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
29357213 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
29357277 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
29357292 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
29357312 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:29365042 original size:40 final size:40
Alignment explanation
Indices: 29364959--29365221 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
29364949 TTGAATGCTG
* * * * * *
29364959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29364999 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29365039 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29365079 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
29365119 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29365159 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29365198 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29365222 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29365241 original size:79 final size:80
Alignment explanation
Indices: 29364998--29365256 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
29364988 AAGTGAATAT
* * * * * * *
29364998 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
29365062 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
29365078 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
29365143 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
29365158 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
29365222 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
29365237 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
29365257 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:29370234 original size:12 final size:12
Alignment explanation
Indices: 29370217--29370255 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
29370207 TGATCGGTTT
29370217 GAGTGATTTGAG
1 GAGTGATTTGAG
29370229 GAGTGATTTGAG
1 GAGTGATTTGAG
*
29370241 GAGGGATTTGAG
1 GAGTGATTTGAG
29370253 GAG
1 GAG
29370256 GAAAATAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.46, T:0.28
Consensus pattern (12 bp):
GAGTGATTTGAG
Found at i:29380034 original size:35 final size:34
Alignment explanation
Indices: 29379989--29380144 Score: 152
Period size: 35 Copynumber: 4.5 Consensus size: 34
29379979 TGTACATATG
29379989 TGATGATATATTGAACTTGTATATTTGGTCACATA
1 TGATGATATATTGAACTTGTATATTT-GTCACATA
* * * * *
29380024 TGATGTTATATTAAACTTGAATATTTGACTACATG
1 TGATGATATATTGAACTTGTATATTTGTC-ACATA
* * * * *
29380059 TGATGTTTTATTGAGCTTGTATATTCGGTCATATA
1 TGATGATATATTGAACTTGTATATT-TGTCACATA
*
29380094 TGATGATATATTGTACTTGTATATTTGTC-CATA
1 TGATGATATATTGAACTTGTATATTTGTCACATA
*
29380127 TGTTATGATATAATGAAC
1 TG--ATGATATATTGAAC
29380145 CTTGAGTATT
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
33 5 0.05
34 5 0.05
35 84 0.88
36 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (34 bp):
TGATGATATATTGAACTTGTATATTTGTCACATA
Found at i:29380071 original size:70 final size:70
Alignment explanation
Indices: 29379986--29380144 Score: 192
Period size: 70 Copynumber: 2.3 Consensus size: 70
29379976 ATATGTACAT
* *
29379986 ATGTGATGATATATTGAACTTGTATATTTGGTCACATATGATGTTATATTAAACTTGAATATTTG
1 ATGTGATGATATATTGAACTTGTATATTCGGTCACATATGATGATATATTAAACTTGAATATTTG
29380051 ACTAC
66 ACTAC
* * * * ** *
29380056 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCATATATGATGATATATTGTACTTGTATATTTG
1 ATGTGATGATATATTGAACTTGTATATTCGGTCACATATGATGATATATTAAACTTGAATATTTG
* * *
29380121 TCCAT
66 ACTAC
* *
29380126 ATGTTATGATATAATGAAC
1 ATGTGATGATATATTGAAC
29380145 CTTGAGTATT
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (70 bp):
ATGTGATGATATATTGAACTTGTATATTCGGTCACATATGATGATATATTAAACTTGAATATTTG
ACTAC
Found at i:29383035 original size:27 final size:26
Alignment explanation
Indices: 29383018--29383087 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
29383008 ATATTAAGTC
29383018 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
29383045 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
29383073 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
29383088 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:29383081 original size:28 final size:28
Alignment explanation
Indices: 29383018--29383115 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
29383008 ATATTAAGTC
*
29383018 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
29383045 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
29383073 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
29383102 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29383116 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29383579 original size:12 final size:12
Alignment explanation
Indices: 29383562--29383588 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
29383552 TGGGCATACT
29383562 TATGTATATATA
1 TATGTATATATA
29383574 TATGTATATATA
1 TATGTATATATA
29383586 TAT
1 TAT
29383589 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:29389825 original size:14 final size:15
Alignment explanation
Indices: 29389806--29389871 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
29389796 CAAAGATAAC
*
29389806 AAGAAA-ACTGAATA
1 AAGAAACACAGAATA
*
29389820 AAGAAACCCAGAATA
1 AAGAAACACAGAATA
29389835 AAGAAATC-CAGAATA
1 AAGAAA-CACAGAATA
* *
29389850 AAGAGATC-CAGGATA
1 AAGA-AACACAGAATA
29389865 AAGAAAC
1 AAGAAAC
29389872 CCAAGATACG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.18
15 34 0.77
16 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAACACAGAATA
Found at i:29389879 original size:15 final size:15
Alignment explanation
Indices: 29389815--29389874 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
29389805 CAAGAAAACT
29389815 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
*
29389830 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
* *
29389845 GAATAAAGAGATCCA
1 GAATAAAGAAACCCA
*
29389860 GGATAAAGAAACCCA
1 GAATAAAGAAACCCA
29389875 AGATACGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:29392960 original size:46 final size:46
Alignment explanation
Indices: 29392785--29392960 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
29392775 TGTAACCCGC
** **
29392785 CCATAAGTGAACTCGGACTCAACTCAATAAGCTCGGGTATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
29392831 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
29392881 CTC-T---TGAACTCGGACTAAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
29392924 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29392961 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 61 0.57
47 27 0.25
50 6 0.06
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:29392960 original size:93 final size:93
Alignment explanation
Indices: 29392792--29392964 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
29392782 CGCCCATAAG
* * **
29392792 TGAACTCGGACTCAACTCAATAAGCTCGGGTATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTAAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
29392857 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
29392885 TGAACTCGGACTAAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTAAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
29392950 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
29392965 CAAATATTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTAAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:29403296 original size:35 final size:35
Alignment explanation
Indices: 29403256--29403408 Score: 162
Period size: 35 Copynumber: 4.4 Consensus size: 35
29403246 GTATGTACAT
29403256 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
29403291 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
29403326 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
29403361 ATATCATGACATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
29403396 ATGTGATGATATA
1 ATGTGATGATATA
29403409 ACGAACCTTG
Statistics
Matches: 92, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:29403375 original size:70 final size:70
Alignment explanation
Indices: 29403256--29403430 Score: 163
Period size: 70 Copynumber: 2.5 Consensus size: 70
29403246 GTATGTACAT
* * * **
29403256 ATGTGATGATATATTGAACTTGTATATTTGGCCACATGTGATGTTATATTAAACTTGAATATTTG
1 ATGTGATGATATATTGAACTTGTATATTCGGCCACATATCATGACATATTAAACTTGAATATTTG
29403321 ACTAC
66 ACTAC
* * * * * ** *
29403326 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCATATATCATGACATATTGTACTTGTATATTTG
1 ATGTGATGATATATTGAACTTGTATATTCGGCCACATATCATGACATATTAAACTTGAATATTTG
* * *
29403391 GCCAT
66 ACTAC
**
29403396 ATGTGATGATATAACGAACCTTG-AGTATTCGGCCA
1 ATGTGATGATATATTGAA-CTTGTA-TATTCGGCCA
29403431 TACAAGTAAG
Statistics
Matches: 81, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
70 68 0.84
71 13 0.16
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (70 bp):
ATGTGATGATATATTGAACTTGTATATTCGGCCACATATCATGACATATTAAACTTGAATATTTG
ACTAC
Found at i:29406691 original size:10 final size:10
Alignment explanation
Indices: 29406676--29406714 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
29406666 TGCTTTTGTA
29406676 CATGATATGC
1 CATGATATGC
29406686 CATGATATGC
1 CATGATATGC
29406696 ACATGATATGC
1 -CATGATATGC
29406707 CATGATAT
1 CATGATAT
29406715 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:29406699 original size:21 final size:21
Alignment explanation
Indices: 29406675--29406714 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
29406665 CTGCTTTTGT
29406675 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
29406696 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
29406715 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:29406828 original size:25 final size:25
Alignment explanation
Indices: 29406761--29406831 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
29406751 ATGAAGTGCT
* *
29406761 AAAAGGGCTTTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
29406786 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
29406811 AAAAGGGCTTTGCCCCAGTTT
1 AAAAGGGCTTTGCCCCAGTTT
29406832 TTAAAAGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:29409135 original size:22 final size:22
Alignment explanation
Indices: 29409096--29409138 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
29409086 ATCACTCTTC
* *
29409096 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
29409118 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
29409139 CTTCTTCTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:29410398 original size:27 final size:27
Alignment explanation
Indices: 29410357--29410466 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
29410347 GAAGCATCCG
*
29410357 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTCTGCCACAATTATCTGATCT
* *
29410384 GGTGGCTCTGGCACATATT-TCTGTTCT
1 GGTGGCTCTGCCACA-ATTATCTGATCT
*
29410411 GGTGGCTCTGCCACGATTATCTGTATCT
1 GGTGGCTCTGCCACAATTATCTG-ATCT
* * * *
29410439 GGTGACTCTGTCAC-ATTATTTGTTCT
1 GGTGGCTCTGCCACAATTATCTGATCT
29410465 GG
1 GG
29410467 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 44 0.63
28 18 0.26
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATTATCTGATCT
Found at i:29410463 original size:54 final size:54
Alignment explanation
Indices: 29410357--29410466 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
29410347 GAAGCATCCG
*
29410357 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGGCACATATTTCTGTTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGGCACATATTTCTGTTCT
* * *
29410411 GGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATT-TGTTCT
1 GGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGGCACATAT-TTCTGTTCT
29410465 GG
1 GG
29410467 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 30 0.60
55 20 0.40
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGGCACATATTTCTGTTCT
Found at i:29416968 original size:22 final size:22
Alignment explanation
Indices: 29416929--29416970 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
29416919 ATCACTCTTC
* *
29416929 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
29416951 CTCTCCATTTGTTATTCTTT
1 CTCTCCATTTATTATTCTTT
29416971 CTTTTTCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:29418232 original size:27 final size:27
Alignment explanation
Indices: 29418193--29418303 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
29418183 GGAAGCGTCA
* *
29418193 TGGTGGCTATGCCACAATTATTTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
29418220 TGGTGGCTCTGCCACATATT-TCTGTTC
1 TGGTGGCTCTGCCACA-ATTATCTGATC
*
29418247 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
29418275 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
29418301 TGG
1 TGG
29418304 CAACCATGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:29418298 original size:54 final size:54
Alignment explanation
Indices: 29418193--29418303 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
29418183 GGAAGCGTCA
* * *
29418193 TGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
* * *
29418247 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTC
29418301 TGG
1 TGG
29418304 CAACCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
Found at i:29418591 original size:26 final size:26
Alignment explanation
Indices: 29418553--29418608 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
29418543 TTGCTTCTAT
*
29418553 GGTTAGATGTTTGATTAGGTGTAAGA
1 GGTTAGATATTTGATTAGGTGTAAGA
*
29418579 GGTTAGATATTTGTTTAGGTGTAAGA
1 GGTTAGATATTTGATTAGGTGTAAGA
29418605 GGTT
1 GGTT
29418609 TCGAGATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (26 bp):
GGTTAGATATTTGATTAGGTGTAAGA
Found at i:29421120 original size:27 final size:27
Alignment explanation
Indices: 29421090--29421142 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
29421080 GACCCCCGAC
*
29421090 TTGTAAAATTACTAAAATACCCCTATT
1 TTGTAAAATTACCAAAATACCCCTATT
*
29421117 TTGTAAAATTACCGAAATACCCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
29421143 AAGGTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTATT
Found at i:29421149 original size:27 final size:27
Alignment explanation
Indices: 29421092--29421152 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
29421082 CCCCCGACTT
* ***
29421092 GTAAAATTACTAAAATACCCCTATTTT
1 GTAAAATTACCAAAATACCCCTATAAG
*
29421119 GTAAAATTACCGAAATACCCCTATAAG
1 GTAAAATTACCAAAATACCCCTATAAG
29421146 GTAAAAT
1 GTAAAAT
29421153 GACTGTTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTATAAG
Found at i:29422031 original size:27 final size:27
Alignment explanation
Indices: 29421972--29422031 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
29421962 GTTTGGGCTA
* *
29421972 GGCCCAATTGATTATGTTATGGGCTGT
1 GGCCCAAATGATTATGTAATGGGCTGT
* *
29421999 GACCCAAATGA-TACTGTAATGGGCTTT
1 GGCCCAAATGATTA-TGTAATGGGCTGT
29422026 GGCCCA
1 GGCCCA
29422032 GTATGCTCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (27 bp):
GGCCCAAATGATTATGTAATGGGCTGT
Found at i:29428001 original size:27 final size:27
Alignment explanation
Indices: 29427965--29428228 Score: 94
Period size: 27 Copynumber: 9.8 Consensus size: 27
29427955 AAATGCCCTC
29427965 TTATAAAATTACCAAAGTACCCTCGAT
1 TTATAAAATTACCAAAGTACCCTCGAT
* * ****
29427992 TTATAGAATTATCGTTTTACCCTCGAT
1 TTATAAAATTACCAAAGTACCCTCGAT
***
29428019 TTATAAAATTACCATTTTACCCTC-AGT
1 TTATAAAATTACCAAAGTACCCTCGA-T
* * ****
29428046 TTACAAAATTATCGTTTTACCCTCGA-
1 TTATAAAATTACCAAAGTACCCTCGAT
* * *
29428072 TTATGAAATTACTGAAA-TACCC-CTAT
1 TTATAAAATTAC-CAAAGTACCCTCGAT
** * * *
29428098 AGGATAGAATTACCAAAATAACCCTAG-T
1 -TTATAAAATTACCAAAGT-ACCCTCGAT
* * * *
29428126 TTGTGAAATTACCAAAATACCC-CTAGT
1 TTATAAAATTACCAAAGTACCCTCGA-T
* * *
29428153 TTGTAAAATTACCAAAATACCACT-GGT
1 TTATAAAATTACCAAAGTACC-CTCGAT
* * *
29428180 TTGTGAAATTACCGAAA-TACCCTCAAT
1 TTATAAAATTACC-AAAGTACCCTCGAT
* *
29428207 TTGTAAAATTACCAAAATACCC
1 TTATAAAATTACCAAAGTACCC
29428229 CTAATTTACA
Statistics
Matches: 181, Mismatches: 41, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
25 2 0.01
26 27 0.15
27 142 0.78
28 10 0.06
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
TTATAAAATTACCAAAGTACCCTCGAT
Found at i:29428029 original size:54 final size:53
Alignment explanation
Indices: 29427965--29428083 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 53
29427955 AAATGCCCTC
* *
29427965 TTATAAAATTACCAAAGTACCCTC-GATTTATAGAATTATCGTTTTACCCTCGA
1 TTATAAAATTACCAAAGTACCCTCAG-TTTACAAAATTATCGTTTTACCCTCGA
***
29428018 TTTATAAAATTACCATTTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGA
1 -TTATAAAATTACCAAAGTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGA
*
29428072 TTATGAAATTAC
1 TTATAAAATTAC
29428084 TGAAATACCC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 11 0.19
54 46 0.79
55 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.39
Consensus pattern (53 bp):
TTATAAAATTACCAAAGTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGA
Found at i:29428244 original size:27 final size:27
Alignment explanation
Indices: 29428105--29428231 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
29428095 TATAGGATAG
* *
29428105 AATTACCAAAATAACCCTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
29428132 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
29428159 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
29428186 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
29428213 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
29428232 ATTTACAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.03
27 80 0.92
28 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:29428244 original size:54 final size:55
Alignment explanation
Indices: 29428075--29428231 Score: 196
Period size: 54 Copynumber: 2.9 Consensus size: 55
29428065 CCCTCGATTA
* ** * *
29428075 TGAAATTACTGAAATACCC-CT-ATAGGATAGAATTACCAAAATAACCCTAGTTTG
1 TGAAATTACCGAAATACCCTCTAATTTG-TAAAATTACCAAAATACCCCTAGTTTG
* * * *
29428129 TGAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTG
1 TGAAATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTAGTTTG
29428183 TGAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTA
1 TGAAATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTA
29428232 ATTTACAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 85 0.97
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (55 bp):
TGAAATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTAGTTTG
Found at i:29428251 original size:54 final size:54
Alignment explanation
Indices: 29428105--29428256 Score: 139
Period size: 54 Copynumber: 2.8 Consensus size: 54
29428095 TATAGGATAG
* *** *
29428105 AATTACCAAAATAACC-CTAGTTTGTGAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAAT-ACCACTAATTTACAAAATTA-CAGAAATACCCTC-AATTTGTAA
** *** *
29428159 AATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTAATTTACAAAATTACAGAAATACCCTCAATTTGTAA
* *
29428213 AATTACCAAAATACCCCTAATTTACAAAATTATAGAAATACCCT
1 AATTACCAAAATACCACTAATTTACAAAATTACAGAAATACCCT
29428257 TGACTTTCTA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.05
54 79 0.94
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCACTAATTTACAAAATTACAGAAATACCCTCAATTTGTAA
Found at i:29428315 original size:27 final size:27
Alignment explanation
Indices: 29428233--29428317 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
29428223 ATACCCCTAA
*
29428233 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
29428261 TTT-CTAAAATTTATAGAAATACCATTGG
1 TTTAC-AAAA-TTATAGAAATACCCTTGG
*
29428289 TTTAGAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCCTTGG
29428316 TT
1 TT
29428318 GTTAGATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
27 18 0.37
28 15 0.31
29 16 0.33
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:29428436 original size:27 final size:27
Alignment explanation
Indices: 29428359--29428436 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
29428349 AAATGACTAA
* *
29428359 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * * *
29428386 AA-AGCCCTTGTAGGGTGAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
29428413 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
29428437 GAATATGCCA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
26 1 0.03
27 35 0.92
28 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:29429322 original size:24 final size:25
Alignment explanation
Indices: 29429246--29429315 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
29429236 AGGAAGTGCT
* * * *
29429246 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
29429271 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
29429296 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
29429316 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:29429328 original size:24 final size:24
Alignment explanation
Indices: 29429271--29429342 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
29429261 TAGTTTACCG
29429271 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
29429295 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
29429319 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
29429343 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:29436067 original size:27 final size:27
Alignment explanation
Indices: 29436037--29436214 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
29436027 ATATTGAGTC
* * * *
29436037 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29436064 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29436091 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
29436119 CACACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29436146 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29436173 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29436200 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29436215 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29436176 original size:82 final size:81
Alignment explanation
Indices: 29436058--29436213 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
29436048 TGCTATATAA
* *
29436058 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCACA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACA
29436123 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
29436140 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACA
29436204 CACTTAGTGC
65 CACTTAGTGC
29436214 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACAC
ACTTAGTGCCGCATGG
Found at i:29444185 original size:27 final size:27
Alignment explanation
Indices: 29444155--29444332 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29444145 ATATTGAGTC
* * * *
29444155 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29444182 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29444209 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29444237 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29444264 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29444291 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29444318 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29444333 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29444294 original size:82 final size:81
Alignment explanation
Indices: 29444176--29444331 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29444166 TGCTATATAA
* *
29444176 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29444241 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29444258 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29444322 CACTTAGTGC
65 CACTTAGTGC
29444332 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29448099 original size:48 final size:48
Alignment explanation
Indices: 29448039--29448663 Score: 998
Period size: 48 Copynumber: 13.0 Consensus size: 48
29448029 CGGCCACAAT
* *
29448039 ATATACACATCTCATACATATTTCACATTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
29448087 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
29448135 ATATATATATCTCATACATATTTCATATTAGCCATTTGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
29448183 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
29448231 ATATACATATTTCATATATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
29448279 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
**
29448327 ATATACATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
29448375 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
29448423 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
29448471 ATATACATATCTCATATATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
29448519 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* ** * **
29448567 ATATATATATCTCATACATATTTCATGTTAGCCATCCGGCTTTACCGT
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
29448615 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
29448663 A
1 A
29448664 CATATTTATA
Statistics
Matches: 537, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 537 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:29451203 original size:19 final size:19
Alignment explanation
Indices: 29451179--29451217 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
29451169 TATTGCAATT
* *
29451179 TAATTTTTTATTTCTTTTC
1 TAATTTTTCATTTATTTTC
29451198 TAATTTTTCATTTATTTTC
1 TAATTTTTCATTTATTTTC
29451217 T
1 T
29451218 TCTAACAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (19 bp):
TAATTTTTCATTTATTTTC
Found at i:29460988 original size:47 final size:47
Alignment explanation
Indices: 29460929--29461084 Score: 158
Period size: 47 Copynumber: 3.3 Consensus size: 47
29460919 TGAACCCGTG
29460929 CTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGA
1 CTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGA
* * * * * * * *
29460976 CTTAACTCAACGAGCTCGGGTG--T-GTGA-ATCCTTAAGTGAACTCAGA
1 CTCAACTCAACGAGTTTGGATGCCTAGTTACAT-C-TCA-CGAACTCGGA
* *
29461022 CTCAAATCAATGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGA
1 CTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGA
*
29461069 CTCAATTCAACGAGTT
1 CTCAACTCAACGAGTT
29461085 CGGAACTTAA
Statistics
Matches: 82, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
43 2 0.02
44 4 0.05
45 3 0.04
46 24 0.29
47 40 0.49
48 3 0.04
49 4 0.05
50 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (47 bp):
CTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCACGAACTCGGA
Found at i:29461039 original size:93 final size:93
Alignment explanation
Indices: 29460875--29461087 Score: 295
Period size: 93 Copynumber: 2.3 Consensus size: 93
29460865 CCTATAAGCA
* * * * *
29460875 AACTGGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGTGCTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGAATCCATAAGTGAACCAGTACTCAAATCAAC
29460940 GAGTTTGGATGCCTAGTTACATCTCACG
66 GAGTTTGGATGCCTAGTTACATCTCACG
* * *
29460968 AACTCGGACTTAACTCAACGAGCTCGGGTGTGT-GAATCCTTAAGTGAACTCAG-ACTCAAATCA
1 AACTCGGACTCAACTCAACGAGCTCGGGCGT-TCGAATCCATAAGTGAAC-CAGTACTCAAATCA
*
29461031 ATGAGTTTGGATGCCTAGTTACATCTCACG
64 ACGAGTTTGGATGCCTAGTTACATCTCACG
* *
29461061 AACTCGGACTCAATTCAACGAGTTCGG
1 AACTCGGACTCAACTCAACGAGCTCGG
29461088 AACTTAAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
93 103 0.97
94 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGAATCCATAAGTGAACCAGTACTCAAATCAAC
GAGTTTGGATGCCTAGTTACATCTCACG
Found at i:29467501 original size:47 final size:47
Alignment explanation
Indices: 29467441--29467656 Score: 235
Period size: 47 Copynumber: 4.6 Consensus size: 47
29467431 ATCCATAAGT
*
29467441 GAACTCGGACTCAACACAACGAGTTCGGATGCCTAGTTACATCTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAA
* * *
29467488 GAACTCGAACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAA
* * * **
29467535 GAAATCGGACTCAACTCAACGAGCTCAGATG--T-G-CGCATC-CATAA
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC--AA
* * *
29467579 GTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCAC
1 --GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAA
* *
29467628 GAACTCGGACTCAACTGAACGAGTACGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
29467657 ACTTAAATAT
Statistics
Matches: 138, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 2 0.01
45 1 0.01
46 26 0.19
47 96 0.70
48 1 0.01
49 2 0.01
50 4 0.03
51 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAA
Found at i:29467651 original size:140 final size:140
Alignment explanation
Indices: 29467394--29467651 Score: 399
Period size: 140 Copynumber: 1.8 Consensus size: 140
29467384 CGCCCATAAG
* ** * * * *
29467394 CGAACTCGGACTCAACTCAACGAGCTTGGCCGTTCGTATCCATAAGTGAACTCGGACTCAACACA
1 CGAAATCGGACTCAACTCAACGAGCTCAGACGTGCGCATCCATAAGTGAACTCAGACTCAACACA
29467459 ACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTCAGATGCCTAG
66 ACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTCAGATGCCTAG
29467524 TTACATCTCA
131 TTACATCTCA
* *
29467534 CGAAATCGGACTCAACTCAACGAGCTCAGATGTGCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAAATCGGACTCAACTCAACGAGCTCAGACGTGCGCATCCATAAGTGAACTCAGACTCAACACA
* * * *
29467599 ATGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTGAACGAGT
66 ACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGT
29467652 ACGGAACTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 105 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (140 bp):
CGAAATCGGACTCAACTCAACGAGCTCAGACGTGCGCATCCATAAGTGAACTCAGACTCAACACA
ACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGAACTCAACTCAACGAGTTCAGATGCCTAG
TTACATCTCA
Found at i:29472039 original size:47 final size:47
Alignment explanation
Indices: 29471983--29472190 Score: 212
Period size: 47 Copynumber: 4.4 Consensus size: 47
29471973 GTGAACTTGG
29471983 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGA
1 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGA
* * *
29472030 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAAATCGG
1 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGA
* * **
29472077 ACTCAACTCAACGAGCTCAGATG--T-G-CGCATC-CATAAGTGAACTC-A
1 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC--AA--GAACTCGA
* * * *
29472122 GACTCAACTCAATGAGTTCGGATGCCTAGTTACATCGCACGAACTCGG
1 -ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGA
* *
29472170 ACTCAACTGAACGAGTACGGA
1 ACTCAACTCAACGAGTTCGGA
29472191 ACTTAAATAT
Statistics
Matches: 130, Mismatches: 20, Indels: 22
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 2 0.02
45 1 0.01
46 25 0.19
47 89 0.68
48 1 0.01
49 2 0.02
50 4 0.03
51 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (47 bp):
ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAAGAACTCGA
Found at i:29472723 original size:30 final size:30
Alignment explanation
Indices: 29472682--29472738 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
29472672 AAAATCATAT
29472682 TTTGGAAAAATTACACTTTTGCCCCTAAAC
1 TTTGGAAAAATTACACTTTTGCCCCTAAAC
* *
29472712 TTTGTAAAAATTACATTTTTGCCCCTA
1 TTTGGAAAAATTACACTTTTGCCCCTA
29472739 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (30 bp):
TTTGGAAAAATTACACTTTTGCCCCTAAAC
Done.